Gene detail

Detailed information of OS493_012165-T1 in Lophelia pertusa

Genomic Location: scaffold_31:2633423...2667497
NR annotation: KAJ7392497.1, Tissue alpha-L-fucosidase [Desmophyllum pertusum]
Species Lophelia pertusa · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
C3YWU0	Alpha-L-fucosidase OS=Branchiostoma floridae OX=7739 GN=BRAFLDRAFT_56888 PE=3 SV=2
P04066	Tissue alpha-L-fucosidase OS=Homo sapiens OX=9606 GN=FUCA1 PE=1 SV=4
Q2KIM0	Tissue alpha-L-fucosidase OS=Bos taurus OX=9913 GN=FUCA1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000718 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF16757 all species →	Fucosidase_C	Alpha-L-fucosidase C-terminal domain	Domain	Interproscan
PF01120 all species →	Alpha_L_fucos	Alpha-L-fucosidase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR016286 all species →	Family	Alpha-L-fucosidase, metazoa-type	Interproscan
IPR031919 all species →	Domain	Alpha-L-fucosidase, C-terminal	Interproscan
IPR000933 all species →	Family	Glycoside hydrolase, family 29	Interproscan
IPR013780 all species →	Homologous_superfamily	Glycosyl hydrolase, all-beta	Interproscan
IPR017853 all species →	Homologous_superfamily	Glycoside hydrolase superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10030 all species →	ALPHA-L-FUCOSIDASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004560 all species →	Molecular Function	alpha-L-fucosidase activity	Interproscan
GO:0006004 all species →	Biological Process	fucose metabolic process	Interproscan
GO:0005975 all species →	Biological Process	carbohydrate metabolic process	Interproscan
GO:0005764 all species →	Cellular Component	lysosome	Interproscan
GO:0016139 all species →	Biological Process	glycoside catabolic process	Interproscan

Search by domain instead of by gene. Any accession above (InterPro, Pfam, PANTHER, GO, KEGG) can be used as a query on the Functional Domain Search page, which searches all 148 annotated genomes at once.

KEGG pathway

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K01206	FUCA; alpha-L-fucosidase	EC:3.2.1.51	Exosome	ko04147	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of OS493_012165-T1 across 110 RNA-seq samples of Lophelia pertusa. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.

110Samples

110TPM > 0

7Conditions

153.6Max TPM

81.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	83.06	127.12
polyp at pH7 6	18	18	83.33	118.00
coral polyp · control treatment	16	16	93.00	129.58
coral polyp · oil and dispersant treatment	16	16	91.46	153.57
coral polyp · oil treatment	16	16	83.51	139.58
coral polyp · dispersant treatment	16	16	82.48	137.37
Polyp	10	10	36.02	59.46

Per sample · hover a bar for the full sample record · show / hide the sample table

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	127.12
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	117.13
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	116.40
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	115.50
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	103.64
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	98.20
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	93.44
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	87.01
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	86.82
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	84.93
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	76.77
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	69.71
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	60.70
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	57.01
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	51.59
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	51.16
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	49.74
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	48.18
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	118.00
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	115.72
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	115.14
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	114.73
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	112.86
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	112.29
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	104.41
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	101.69
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	88.81
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	85.62
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	75.48
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	74.71
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	65.01
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	51.24
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.70
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.59
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.10
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.85
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	129.58
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	126.61
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	126.08
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	115.26
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	112.92
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	104.90
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	101.64
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	100.37
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	97.38
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	94.96
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	88.11
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	87.07
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	70.55
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	53.37
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.71
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.57
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	153.57
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	136.72
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	133.75
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	114.93
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	113.47
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	92.91
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	90.69
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	88.71
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	76.96
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	74.79
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	74.09
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	72.76
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	72.41
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	69.68
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	58.39
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.49
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	139.58
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	120.43
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	114.77
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	110.88
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	104.62
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	101.39
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	87.11
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	80.39
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	78.05
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	77.47
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	74.90
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	61.51
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	59.74
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	51.97
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	46.25
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.07
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	137.37
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	123.03
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	111.60
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	110.02
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	109.51
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	109.19
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	100.19
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	86.65
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	85.20
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	83.78
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	66.76
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	65.81
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	57.69
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	45.27
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.56
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.03
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	59.46
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	47.03
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	46.36
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	42.42
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	40.74
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	39.34
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	30.99
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	20.17
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	17.90
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	15.77

Source: CnidoSite RNA-seq expression matrices (LPERT_TPM, StringTie quantification over 110 runs), joined to SRA sample metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped by the descriptor carried in the expression matrix itself.